Your story is lovely.  I think it would be touching -- at some point -- to see Snape try to make up with Harry after punishing him unfairly.  You make it clear that Snape always carefully determines exactly what Harry did and whether or not Harry understood Snape's rules before punishing him.  You would need a situation where Harry will not admit what he was doing or why, such as trying to protect Snape or trying to do something very nice for him (like obtaining some of the potion ingredients that he destroyed) -- then have Snape jump to the wrong conclusions, hurting Harry's feelings terribly.

I can see Snape trying to deal with a heartbroken Harry as the catalyst for a breakthrough between the two of them.

I am as eager for your updates as anyone, but please don't let us rush you.  Take the time you need to write your story the way you want it written.

Good work!!!

 Update as soon as possible!!!